教授
2010.5 - 2018.12 上海交通大学生物信息与生物统计学系 副教授
针对高通量蛋白质组数据特征，开发算法和统计模型，鉴定复杂疾病和重要表型的驱动蛋白质或蛋白质修饰；绘制癌症蛋白质组图谱，揭示癌症亚型，发现精准诊疗新靶标。
围绕复杂疾病相关的基因组、转录组、蛋白质组、蛋白质修饰组以及临床表型等多组学数据，提出整合分析算法，构建不同层次信号互作与调控网络，识别关键调控因子。
开发原创的癌症和复杂表型相关的蛋白质组及多组学数据库、计算平台；进行数据的整合分析与可视化，提高数据挖掘效率。
Dong Q, Shen D, Ye J, Chen J, Li J*. PhosCancer: A comprehensive database for investigating protein phosphorylation in human cancer. iScience. 27(11):111060, 2024.
Dong Q, Tan M, Zhou Y, Zhang Y*, Li J*.Causal Inference and Annotation of Phosphoproteomics Data in Multiomics Cancer Studies. Molecular & Cellular Proteomics. 24(3): 100905, 2025.
Yi X, Zhao H, Hu S, Dong L, Dou Y, Li J*, Qiang Gao Q*, Bing Zhang*. Tumor-associated antigen prediction using a single-sample gene expression state inference algorithm. Cell Reports Methods. 4:100906,2024.
Dong B, Xu JY, Huang Y, Guo J, Dong Q, ... , Li J*, Xue W*, Tan M*, Qin J*. Integrative proteogenomic profiling of high-risk prostate cancer samples from Chinese patients indicates metabolic vulnerabilities and diagnostic biomarkers. Nature Cancer. 5 :1427–1447, 2024.
Yang X, Zhao L, Wei F, Li J*. DeepNetBim: deep learning model for predicting HLA‑epitope interactions based on network analysis by harnessing binding and immunogenicity information. BMC Bioinformatics. 22:231, 2021.
Cheng X, Qian L, Wang B, Tan M*, Li J*. SPA: A Quantitation Strategy for MS Data in Patient-derived Xenograft Models. Genomics Proteomics Bioinformatics. 2021 Aug;19(4):522-533.
Chang Y, Fan Q, Hou J, Zhang Y, Li J*. A community-supported metaproteomic pipeline for improving peptide identifications in hydrothermal vent microbiota. Briefings in Bioinformatics. 2021 Sep 2;22(5):bbab052.
Lei M, Xu J, Huang L, Wang L, Li J*. Network Module-Based Model in the Differen-tial Expression Analysis for RNA-seq. Bioinformatics. 33(17):2699-2705, 2017.
论文下载
支撑材料
论文下载近年主持科研项目：国家自然科学基金面上项目：癌症磷酸化蛋白质组功能图谱的计算与绘制 ( 2026.01-2029.12）
上海市计算生物学重点项目: 肿瘤队列多层次数据集成共性技术 (2023-2026)
国家自然科学基金面上项目：含缺失值的定量蛋白质组修饰谱差异分析方法研究（2019.1-2022.12）